Job ID = 11245174 sra ファイルのダウンロード中... Completed: 21426K bytes transferred in 2 seconds (58670K bits/sec), in 1 file. Completed: 146221K bytes transferred in 4 seconds (246654K bits/sec), in 1 file. sra ファイルのダウンロードが完了しました。 Read layout: PAIRED fastq に変換中... Read 458858 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669618/SRR7818204.sra Written 458858 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669618/SRR7818204.sra Read 3980070 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669618/SRR7818205.sra Written 3980070 spots for /home/okishinya/chipatlas/results/sacCer3/SRX4669618/SRR7818205.sra rm: cannot remove `[DSE]RX*': そのようなファイルやディレクトリはありません fastq に変換しました。 bowtie でマッピング中... Time loading reference: 00:00:00 Time loading forward index: 00:00:01 Time loading mirror index: 00:00:00 Multiseed full-index search: 00:03:19 4438928 reads; of these: 4438928 (100.00%) were paired; of these: 428420 (9.65%) aligned concordantly 0 times 3542731 (79.81%) aligned concordantly exactly 1 time 467777 (10.54%) aligned concordantly >1 times ---- 428420 pairs aligned concordantly 0 times; of these: 14510 (3.39%) aligned discordantly 1 time ---- 413910 pairs aligned 0 times concordantly or discordantly; of these: 827820 mates make up the pairs; of these: 646178 (78.06%) aligned 0 times 130072 (15.71%) aligned exactly 1 time 51570 (6.23%) aligned >1 times 92.72% overall alignment rate Time searching: 00:03:20 Overall time: 00:03:20 マッピングが完了しました。 samtools でBAM に変換中... [samopen] SAM header is present: 17 sequences. [bam_rmdup_core] processing reference chrI... [bam_rmdup_core] processing reference chrII... [bam_rmdup_core] processing reference chrIII... [bam_rmdup_core] processing reference chrIV... [bam_rmdup_core] processing reference chrIX... [bam_rmdup_core] processing reference chrM... [bam_rmdup_core] processing reference chrV... [bam_rmdup_core] processing reference chrVI... [bam_rmdup_core] processing reference chrVII... [bam_rmdup_core] processing reference chrVIII... [bam_rmdup_core] processing reference chrX... [bam_rmdup_core] processing reference chrXI... [bam_rmdup_core] processing reference chrXII... [bam_rmdup_core] processing reference chrXIII... [bam_rmdup_core] processing reference chrXIV... [bam_rmdup_core] processing reference chrXV... [bam_rmdup_core] processing reference chrXVI... [bam_rmdup_core] 682420 / 4022840 = 0.1696 in library ' ' BAM に変換しました。 Bed ファイルを作成中... BedGraph に変換中... INFO @ Tue, 09 Oct 2018 23:47:05: # Command line: callpeak -t SRX4669618.bam -f BAM -g 12100000 -n SRX4669618.20 -q 1e-20 # ARGUMENTS LIST: # name = SRX4669618.20 # format = BAM # ChIP-seq file = ['SRX4669618.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-20 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Tue, 09 Oct 2018 23:47:05: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:47:05: # Command line: callpeak -t SRX4669618.bam -f BAM -g 12100000 -n SRX4669618.10 -q 1e-10 # ARGUMENTS LIST: # name = SRX4669618.10 # format = BAM # ChIP-seq file = ['SRX4669618.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-10 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Tue, 09 Oct 2018 23:47:05: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:47:05: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:47:05: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:47:05: # Command line: callpeak -t SRX4669618.bam -f BAM -g 12100000 -n SRX4669618.05 -q 1e-05 # ARGUMENTS LIST: # name = SRX4669618.05 # format = BAM # ChIP-seq file = ['SRX4669618.bam'] # control file = None # effective genome size = 1.21e+07 # band width = 300 # model fold = [5, 50] # qvalue cutoff = 1.00e-05 # Larger dataset will be scaled towards smaller dataset. # Range for calculating regional lambda is: 10000 bps # Broad region calling is off # Paired-End mode is off INFO @ Tue, 09 Oct 2018 23:47:05: #1 read tag files... INFO @ Tue, 09 Oct 2018 23:47:05: #1 read treatment tags... INFO @ Tue, 09 Oct 2018 23:47:11: 1000000 INFO @ Tue, 09 Oct 2018 23:47:13: 1000000 INFO @ Tue, 09 Oct 2018 23:47:13: 1000000 INFO @ Tue, 09 Oct 2018 23:47:17: 2000000 INFO @ Tue, 09 Oct 2018 23:47:20: 2000000 INFO @ Tue, 09 Oct 2018 23:47:20: 2000000 INFO @ Tue, 09 Oct 2018 23:47:24: 3000000 INFO @ Tue, 09 Oct 2018 23:47:28: 3000000 INFO @ Tue, 09 Oct 2018 23:47:28: 3000000 INFO @ Tue, 09 Oct 2018 23:47:30: 4000000 INFO @ Tue, 09 Oct 2018 23:47:36: 4000000 INFO @ Tue, 09 Oct 2018 23:47:36: 4000000 INFO @ Tue, 09 Oct 2018 23:47:37: 5000000 INFO @ Tue, 09 Oct 2018 23:47:43: 6000000 INFO @ Tue, 09 Oct 2018 23:47:44: 5000000 INFO @ Tue, 09 Oct 2018 23:47:44: 5000000 INFO @ Tue, 09 Oct 2018 23:47:48: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:47:48: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:47:48: #1 total tags in treatment: 3330291 INFO @ Tue, 09 Oct 2018 23:47:48: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:47:48: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 23:47:48: #1 tags after filtering in treatment: 2848622 INFO @ Tue, 09 Oct 2018 23:47:48: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 09 Oct 2018 23:47:48: #1 finished! INFO @ Tue, 09 Oct 2018 23:47:48: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:47:48: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:47:49: #2 number of paired peaks: 46 WARNING @ Tue, 09 Oct 2018 23:47:49: Too few paired peaks (46) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Tue, 09 Oct 2018 23:47:49: Process for pairing-model is terminated! cat: SRX4669618.05_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) rm: cannot remove `SRX4669618.05_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX4669618.05_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX4669618.05_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling INFO @ Tue, 09 Oct 2018 23:47:52: 6000000 INFO @ Tue, 09 Oct 2018 23:47:52: 6000000 INFO @ Tue, 09 Oct 2018 23:47:59: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:47:59: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:47:59: #1 total tags in treatment: 3330291 INFO @ Tue, 09 Oct 2018 23:47:59: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:47:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 23:47:59: #1 tag size is determined as 51 bps INFO @ Tue, 09 Oct 2018 23:47:59: #1 tag size = 51 INFO @ Tue, 09 Oct 2018 23:47:59: #1 total tags in treatment: 3330291 INFO @ Tue, 09 Oct 2018 23:47:59: #1 user defined the maximum tags... INFO @ Tue, 09 Oct 2018 23:47:59: #1 filter out redundant tags at the same location and the same strand by allowing at most 1 tag(s) INFO @ Tue, 09 Oct 2018 23:47:59: #1 tags after filtering in treatment: 2848622 INFO @ Tue, 09 Oct 2018 23:47:59: #1 tags after filtering in treatment: 2848622 INFO @ Tue, 09 Oct 2018 23:47:59: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 09 Oct 2018 23:47:59: #1 Redundant rate of treatment: 0.14 INFO @ Tue, 09 Oct 2018 23:47:59: #1 finished! INFO @ Tue, 09 Oct 2018 23:47:59: #1 finished! INFO @ Tue, 09 Oct 2018 23:47:59: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:47:59: #2 Build Peak Model... INFO @ Tue, 09 Oct 2018 23:47:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:47:59: #2 looking for paired plus/minus strand peaks... INFO @ Tue, 09 Oct 2018 23:47:59: #2 number of paired peaks: 46 WARNING @ Tue, 09 Oct 2018 23:47:59: Too few paired peaks (46) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Tue, 09 Oct 2018 23:47:59: Process for pairing-model is terminated! INFO @ Tue, 09 Oct 2018 23:47:59: #2 number of paired peaks: 46 WARNING @ Tue, 09 Oct 2018 23:47:59: Too few paired peaks (46) so I can not build the model! Broader your MFOLD range parameter may erase this error. If it still can't build the model, we suggest to use --nomodel and --extsize 147 or other fixed number instead. WARNING @ Tue, 09 Oct 2018 23:47:59: Process for pairing-model is terminated! cat: SRX4669618.10_peaks.narrowPeak: そのようなファイルやディレクトリはありません cat: SRX4669618.20_peaks.narrowPeak: そのようなファイルやディレクトリはありません pass1 - making usageList (0 chroms): 1 millis needLargeMem: trying to allocate 0 bytes (limit: 17179869184) pass1 - making usageList (0 chroms): 1 millis rm: cannot remove `SRX4669618.10_model.r'needLargeMem: trying to allocate 0 bytes (limit: 17179869184): そのようなファイルやディレクトリはありません rm: cannot remove `SRX4669618.10_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX4669618.10_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling rm: cannot remove `SRX4669618.20_model.r': そのようなファイルやディレクトリはありません rm: cannot remove `SRX4669618.20_*.xls': そのようなファイルやディレクトリはありません rm: cannot remove `SRX4669618.20_peaks.narrowPeak': そのようなファイルやディレクトリはありません CompletedMACS2peakCalling BedGraph に変換しました。 BigWig に変換中... BigWig に変換しました。